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ID: 1384776086 Query Sequence

Download Alignment
We filter this alignment to remove positions that have > 75% gaps before running GREMLIN.
Length: 666 (650)
Sequences: 745 (584)
Seq/Len: 1.146
Nf(neff/√len): 22.9

HHblits Results: (2013_03)
Sequences per length for each position, BEFORE the coverage/gap filter was applied

Legend: Dots above the red line, indicates positions where there is > 5 sequences per length (if visible, green bar = 20 seq/len). Point of this graphic is to give you an idea if resubmitting a sub-portion of your sequence might help increase the overall Seq/Len (which after applying the coverage filter is at: 1.146).

Sequences per length for each position, AFTER the coverage/gap filter was applied
Legend: If visible, the positions blocked in grey are regions that have > 75% gaps and were automatically trimmed and excluded in the GREMLIN analysis.

Trim query Generate MSA using: Filter MSA GREMLIN
Start: End: E-value: Iterations: Coverage: Remove gaps: Prior:

GREMLIN Results:
Residue pairs sorted by coevolution strength:

Legend: The darker and larger the blue dots, the higher strength in covariance. Below we provide the list of the top [1.5 x length] covarying residues with sequence seperation > 3. The i and j are positions as given in the input sequence.

ij Scaled score Prob
120_S128_G2.7651.00
116_I120_S2.6321.00
6_L9_I2.4900.99
120_S129_A2.4500.99
210_A237_L2.4030.99
245_F604_V2.2670.99
275_G576_M2.2370.99
215_Y608_H2.2090.98
117_S120_S2.1940.98
116_I128_G2.1190.98
157_F161_I2.0280.97
301_L547_S2.0160.97
242_T608_H2.0110.97
117_S128_G1.9640.96
6_L10_M1.9480.96
271_F581_L1.9230.95
269_Y592_N1.9160.95
246_F291_T1.8730.94
17_Q21_I1.8420.94
608_H612_S1.8250.93
151_F156_M1.8150.93
21_I24_F1.8050.93
77_N174_N1.7530.91
9_I16_T1.7460.91
409_V413_N1.7300.91
646_Y653_T1.7230.91
256_I260_V1.6930.89
295_T299_V1.6670.89
574_D578_K1.6490.88
219_L611_I1.6250.87
207_G548_I1.5960.85
194_V197_R1.5950.85
135_I541_F1.5740.84
242_T612_S1.5740.84
238_V612_S1.5740.84
17_Q20_V1.5710.84
426_S450_K1.5620.84
214_G238_V1.5490.83
120_S324_D1.5340.82
6_L12_R1.5340.82
10_M13_Q1.5230.82
295_T605_A1.5130.81
94_L98_K1.5120.81
253_I588_K1.5070.81
9_I13_Q1.5070.81
194_V198_W1.4800.79
68_L72_F1.4790.79
237_L241_G1.4740.79
254_I277_R1.4680.78
640_I648_A1.4620.78
420_L428_G1.4560.77
25_I30_V1.4530.77
245_F249_I1.4500.77
113_F117_S1.4500.77
258_Q274_V1.4470.77
17_Q24_F1.4440.77
204_I249_I1.4190.75
6_L11_R1.4160.75
68_L76_A1.4150.75
327_F500_V1.4130.74
236_G240_I1.4130.74
9_I12_R1.4130.74
546_V550_I1.4020.74
21_I32_F1.4010.73
547_S608_H1.3860.72
214_G241_G1.3810.72
550_I608_H1.3730.71
21_I31_L1.3720.71
24_F109_T1.3640.71
218_A611_I1.3640.71
196_S199_L1.3620.70
112_Q128_G1.3510.70
165_V169_M1.3460.69
164_A168_G1.3390.69
24_F31_L1.3340.68
646_Y660_V1.3310.68
160_L172_I1.3300.68
561_K565_E1.3270.68
303_M307_T1.3240.67
79_F91_F1.3220.67
215_Y242_T1.3170.67
89_S163_I1.3160.67
280_L602_M1.3040.66
556_L560_Y1.3030.65
561_K597_L1.3000.65
65_M239_I1.2990.65
547_S550_I1.2970.65
347_D607_I1.2970.65
283_N451_V1.2940.65
66_A109_T1.2850.64
104_I586_I1.2820.64
646_Y654_S1.2780.63
36_Y40_S1.2730.63
10_M194_V1.2680.62
294_C642_I1.2620.62
411_D414_R1.2600.62
138_I276_M1.2600.62
138_I371_K1.2580.61
84_R89_S1.2450.60
79_F563_V1.2450.60
650_Y657_Y1.2430.60
529_L579_L1.2430.60
298_I554_I1.2420.60
239_I296_F1.2370.60
246_F257_L1.2350.59
116_I129_A1.2340.59
215_Y241_G1.2290.59
36_Y39_V1.2270.59
151_F184_I1.2270.59
183_P207_G1.2260.59
155_A159_T1.2240.58
9_I20_V1.2210.58
204_I252_I1.2200.58
443_G472_V1.2120.57
409_V473_K1.2120.57
32_F36_Y1.2120.57
307_T620_L1.2110.57
297_L306_T1.2100.57
125_Y128_G1.2070.57
471_I659_K1.2070.57
17_Q32_F1.2050.57
590_T657_Y1.2000.56
422_L426_S1.2000.56
79_F653_T1.1940.56
9_I196_S1.1940.56
268_R275_G1.1920.55
167_M170_L1.1920.55
79_F564_S1.1900.55
23_P559_Y1.1850.55
10_M25_I1.1830.54
97_T100_S1.1820.54
205_V209_A1.1790.54
163_I166_L1.1780.54
88_F272_V1.1770.54
122_A126_L1.1770.54
24_F32_F1.1760.54
541_F561_K1.1760.54
91_F288_A1.1720.53
298_I572_N1.1690.53
99_K142_E1.1690.53
10_M14_F1.1680.53
113_F120_S1.1670.53
235_I295_T1.1660.53
231_I234_V1.1650.53
300_T303_M1.1640.53
320_T641_I1.1620.52
128_G324_D1.1620.52
13_Q194_V1.1590.52
261_S265_Y1.1540.52
250_S412_Y1.1520.51
168_G603_T1.1500.51
6_L16_T1.1490.51
299_V616_V1.1480.51
202_V640_I1.1460.51
642_I650_Y1.1440.51
10_M16_T1.1430.51
9_I194_V1.1430.51
39_V44_N1.1430.51
161_I659_K1.1420.51
112_Q120_S1.1410.50
423_D426_S1.1400.50
176_F180_F1.1390.50
271_F573_Y1.1380.50
650_Y661_I1.1380.50
542_V579_L1.1370.50
571_H619_L1.1370.50
12_R16_T1.1360.50
33_M42_G1.1270.49
214_G258_Q1.1270.49
88_F105_V1.1270.49
427_I451_V1.1250.49
20_V23_P1.1250.49
88_F554_I1.1170.48
287_L293_L1.1160.48
209_A213_L1.1140.48
283_N294_C1.1140.48
117_S129_A1.1110.48
606_L639_V1.1110.48
23_P556_L1.1100.47
541_F545_V1.1090.47
297_L547_S1.1080.47
450_K603_T1.1080.47
279_R283_N1.1070.47
94_L105_V1.1070.47
254_I276_M1.1060.47
10_M196_S1.1060.47
16_T23_P1.1050.47
294_C578_K1.1040.47
566_A661_I1.1040.47
251_E254_I1.1030.47
238_V279_R1.0980.46
72_F559_Y1.0980.46
208_S240_I1.0980.46
284_A559_Y1.0980.46
593_Q602_M1.0970.46
97_T132_F1.0960.46
193_S646_Y1.0960.46
161_I262_K1.0920.46
32_F38_L1.0920.46
128_G271_F1.0910.46
650_Y654_S1.0890.45
35_E72_F1.0890.45
134_F245_F1.0890.45
288_A604_V1.0890.45
71_I90_I1.0890.45
111_L573_Y1.0870.45
20_V28_V1.0860.45
254_I653_T1.0840.45
249_I252_I1.0830.45
113_F128_G1.0820.45
238_V242_T1.0820.45
255_S277_R1.0810.45
120_S271_F1.0810.45
275_G547_S1.0800.45
560_Y569_N1.0790.44
24_F30_V1.0790.44
277_R597_L1.0770.44
291_T604_V1.0760.44
563_V576_M1.0760.44
19_L30_V1.0730.44
9_I329_D1.0730.44
544_G553_G1.0720.44
207_G344_I1.0710.44
170_L173_F1.0710.44
66_A293_L1.0700.44
177_S182_R1.0700.44
540_I608_H1.0700.44
34_I38_L1.0670.43
203_L247_V1.0660.43
218_A234_V1.0660.43
278_V292_L1.0660.43
414_R421_H1.0660.43
4_R7_W1.0630.43
65_M546_V1.0620.43
80_M556_L1.0620.43
206_I244_A1.0610.43
294_C559_Y1.0580.43
427_I449_F1.0580.43
171_L174_N1.0570.42
296_F299_V1.0570.42
313_H627_N1.0560.42
278_V282_M1.0540.42
135_I561_K1.0530.42
4_R8_H1.0530.42
161_I240_I1.0530.42
167_M171_L1.0530.42
251_E278_V1.0510.42
180_F576_M1.0510.42
23_P72_F1.0500.42
84_R241_G1.0500.42
215_Y612_S1.0490.42
85_R189_H1.0490.42
214_G279_R1.0470.41
23_P560_Y1.0460.41
19_L31_L1.0450.41
169_M498_F1.0440.41
208_S262_K1.0440.41
212_Y216_F1.0430.41
8_H194_V1.0430.41
94_L653_T1.0420.41
184_I415_Y1.0420.41
377_K380_Q1.0420.41
97_T582_D1.0420.41
294_C608_H1.0410.41
5_L12_R1.0400.41
76_A112_Q1.0390.41
178_I327_F1.0390.41
274_V559_Y1.0370.41
206_I210_A1.0370.41
206_I584_G1.0370.41
496_I611_I1.0320.40
83_Q282_M1.0320.40
546_V600_I1.0310.40
172_I176_F1.0300.40
562_Q646_Y1.0290.40
115_I258_Q1.0280.40
68_L196_S1.0270.40
561_K569_N1.0270.40
132_F559_Y1.0260.40
38_L43_L1.0260.40
543_G569_N1.0260.40
182_R185_T1.0250.39
80_M547_S1.0240.39
90_I93_T1.0230.39
242_T550_I1.0230.39
120_S127_L1.0230.39
260_V567_Y1.0210.39
279_R569_N1.0210.39
639_V645_L1.0200.39
5_L9_I1.0190.39
90_I537_G1.0190.39
65_M134_F1.0180.39
506_L509_S1.0180.39
93_T168_G1.0170.39
19_L32_F1.0160.39
31_L545_V1.0150.39
82_S582_D1.0150.39
304_T576_M1.0140.38
168_G172_I1.0130.38
71_I290_I1.0130.38
274_V283_N1.0130.38
81_M246_F1.0120.38
24_F132_F1.0120.38
26_L225_F1.0120.38
558_M597_L1.0110.38
546_V557_M1.0110.38
154_V159_T1.0110.38
299_V573_Y1.0110.38
248_G600_I1.0100.38
81_M174_N1.0100.38
13_Q559_Y1.0090.38
10_M198_W1.0090.38
251_E274_V1.0090.38
231_I254_I1.0090.38
299_V612_S1.0080.38
165_V470_L1.0080.38
231_I623_I1.0070.38
34_I37_T1.0070.38
209_A406_A1.0060.38
234_V555_F1.0050.38
31_L109_T1.0040.38
72_F80_M1.0020.37
215_Y246_F1.0020.37
61_A207_G1.0020.37
271_F275_G1.0020.37
Legend: Only predictions with Scaled Score > 1 are listed. For all 3L/2 predictions, click on one of the links below.
Prob = P(contact | scaled_score, seq/len).
Scaled Score = (raw_score/average(raw_scores)).
NEW Features
HHsearch Results: (08Feb14)
GREMLIN results overlayed on top 10 PDB hits:
Legend: Blue filled circles are GREMLIN results (Scaled Score > 1). The grey/red filled circles underneath are pdb residue contacts (min distance < 5 Angstroms). The shade of the circles is based on 10 HHsearch results which uses the overall probability and per-position alignment confidence. Inter oligomeric contacts in the pdb are in shades of red.
PDB M Cov P(%) HHΔ  
2f95B10.07515.70.985Contact Map
2l2tA20.06614.90.985Contact Map
3hd7A20.06164.80.985Contact Map
2kogA10.06163.70.986Contact Map
2rddB10.04953.40.986Contact Map
1iijA10.05263.40.986Contact Map
2m3eA10.07513.10.986Contact Map
4djcB10.01952.90.987Contact Map
2ks1B10.06612.70.987Contact Map
1jb0X10.0392.60.987Contact Map
M = number of chains, if homo-oligomer
Cov = coverage of hit
P(%) = probability

Sequence Conservation (Image Generated using WebLogo v3)
Legend: Color is used to show Hydrophobicity (Blue: Hydrophilic, Green: Neutral and Black: Hydrophobic). Amount of gaps is represented by width.

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